SMTL ID : 7nup.4 (3 other biounits)

Endoplasmic reticulum aminopeptidase 2 complexed with a mixed hydroxamic and sulfonyl ligand

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN.1: 5 residues within 4Å: Chain A: H.83, P.84, N.85, E.227, L.248 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.2: 6 residues within 4Å: Chain A: N.219, T.255, T.256, V.257, K.258, Y.487 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.3: 3 residues within 4Å: Chain A: N.405, D.414, K.466 No protein-ligand interaction detected (PLIP)

1 x ZN: ZINC ION(Non-covalent)

ZN.4: 5 residues within 4Å: Chain A: H.370, E.371, H.374, E.393 Ligands: USK.9 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.370, A:H.374, A:E.393

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.5: 1 residues within 4Å: Chain A: N.103 No protein-ligand interaction detected (PLIP) NAG.6: 2 residues within 4Å: Chain A: N.431, K.545 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.545 NAG.7: 3 residues within 4Å: Chain A: Q.649, N.650, T.652 No protein-ligand interaction detected (PLIP) NAG.8: 2 residues within 4Å: Chain A: N.294, D.352 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.352

1 x USK: (3~{S})-4-(4-hydroxyphenyl)-~{N}-oxidanyl-3-[5-[[(5-phenylthiophen-2-yl)sulfonylamino]methyl]-1,2,3-triazol-1-yl]butanamide(Non-covalent)

USK.9: 19 residues within 4Å: Chain A: G.334, A.335, E.337, R.345, S.348, W.363, V.367, H.370, E.371, H.374, E.393, K.397, Q.447, F.450, Y.455, Y.892, R.895 Ligands: ZN.4, BR.11 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:W.363, A:W.363, A:F.450, A:Y.892, A:Y.892 Hydrogen bonds: A:G.334, A:A.335, A:A.335, A:F.450, A:Y.455, A:R.895, A:R.895

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.10: 3 residues within 4Å: Chain A: P.237, K.283, S.321 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.283, A:S.321

1 x BR: BROMIDE ION(Non-covalent)

BR.11: 2 residues within 4Å: Chain A: P.333 Ligands: USK.9 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mpakali, A. et al., Endoplasmic reticulum aminopeptidase 2 complexed with a mixed hydroxamic and sulfonyl ligand. To Be Published

Release Date

2022-06-22

Peptides

Endoplasmic reticulum aminopeptidase 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

Endoplasmic reticulum aminopeptidase 2

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